genome.fa.s1129.2.7.7.80.10.50.1000.28.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  28  of  89  ( 10573 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6169184--6169301	33	3.8	33	74	17	135	44	7	5	41	1.57
6169171--6169301	58	2.2	58	90	2	208	45	7	5	41	1.55
6169219--6169267	25	2.0	25	87	0	71	44	8	6	40	1.59
6169061--6169315	109	2.4	105	86	5	343	46	7	5	40	1.54
6172753--6172799	14	3.7	14	71	26	50	51	4	0	44	1.21
6172750--6172800	23	2.2	24	96	3	95	49	3	0	47	1.20
6173069--6173170	16	6.4	16	87	1	134	40	10	27	21	1.86
6174366--6174416	26	2.0	26	100	0	102	17	15	15	50	1.78
6174678--6174705	8	3.5	8	100	0	56	0	35	0	64	0.94
6175236--6175284	19	2.6	19	100	0	98	26	20	30	22	1.98
6175629--6176336	118	6.0	118	87	4	880	37	10	20	31	1.87
6175630--6176189	59	9.5	58	79	8	578	36	11	21	30	1.89
6175637--6176353	59	12.2	58	74	12	441	37	10	20	30	1.87
6176449--6177505	44	25.0	44	84	8	1177	42	6	19	31	1.77
6176452--6177520	43	25.2	43	84	8	1177	42	6	19	31	1.77
6176452--6177520	87	12.6	87	82	9	1207	42	6	19	31	1.77
6176721--6176793	32	2.2	32	90	2	110	43	6	17	31	1.75
6176510--6177505	119	7.9	122	87	7	1176	42	6	19	30	1.78
6176840--6176912	32	2.2	32	85	2	92	43	6	16	32	1.74
6176928--6176997	21	3.3	21	64	4	59	45	8	15	30	1.76
6178213--6178241	2	14.5	2	100	0	58	48	0	0	51	1.00
6183792--6183859	12	5.7	12	96	0	127	16	16	25	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6186268--6186298	15	2.1	15	100	0	62	38	9	19	32	1.84
6187013--6187041	2	15.0	2	92	7	51	48	0	0	51	1.00
6189088--6189163	36	2.1	36	97	0	143	43	14	10	31	1.79
6194037--6194121	25	3.3	25	85	6	109	49	25	12	11	1.75
6195876--6195911	18	2.0	18	88	0	54	36	25	2	36	1.70
6200707--6200758	18	3.1	17	75	8	61	40	15	1	42	1.58
6201245--6201292	23	2.0	24	84	11	64	18	2	4	75	1.07
6201441--6201486	22	2.0	23	83	4	58	45	2	0	52	1.13
6201602--6201863	137	1.9	136	85	5	366	45	8	7	38	1.62
6203106--6203137	11	2.9	11	100	0	64	81	9	0	9	0.88
6205752--6205802	2	25.5	2	100	0	102	50	0	0	49	1.00
6207482--6208044	178	3.1	176	76	10	516	39	10	10	40	1.74
6208122--6208384	138	1.9	137	88	4	395	38	7	7	46	1.60
6209230--6209282	18	3.1	17	81	7	63	39	0	15	45	1.46
6213829--6214075	133	1.9	135	85	5	351	38	8	7	46	1.61
6216522--6216547	3	8.7	3	100	0	52	0	0	30	69	0.89
6221485--6221514	2	15.0	2	100	0	60	50	0	0	50	1.00
6224553--6224625	31	2.4	31	86	4	103	39	12	15	32	1.84
6224815--6224852	20	1.9	19	89	5	58	23	5	10	60	1.50
6224860--6224886	2	13.5	2	100	0	54	48	0	0	51	1.00
6225579--6225718	70	2.0	70	97	0	262	47	15	9	27	1.75
6226429--6226470	20	2.1	20	86	0	57	30	23	16	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6237506--6237564	26	2.3	26	88	2	84	35	28	13	22	1.92
6238774--6238812	20	2.0	20	94	0	69	38	2	2	56	1.27
6238997--6239030	17	1.9	18	94	5	61	58	0	0	41	0.98
6250478--6250567	25	3.6	25	86	0	126	52	26	11	10	1.68
6254572--6254608	17	2.2	17	95	0	65	18	29	13	37	1.90
6255798--6255957	60	2.7	60	80	3	173	33	18	5	43	1.72
6257795--6257847	18	3.1	17	76	7	54	43	15	1	39	1.57
6258686--6258947	137	1.9	137	85	3	357	45	7	7	40	1.60
6263881--6263912	15	2.1	15	94	0	55	37	9	6	46	1.61
6264704--6264963	135	1.9	139	85	7	372	39	6	7	46	1.60
6265077--6265118	22	2.0	21	82	17	52	57	0	2	40	1.12
6268591--6268746	58	2.7	58	79	7	149	42	5	19	32	1.73
6270038--6270100	28	2.2	29	97	2	119	38	6	22	33	1.79
6270422--6270678	136	1.9	135	85	5	358	37	7	7	47	1.61
6270600--6270640	17	2.3	19	80	16	52	41	4	4	48	1.46
6277564--6277595	15	2.1	15	94	0	55	37	9	6	46	1.61
6277754--6278253	180	2.8	181	76	11	444	41	10	10	37	1.75
6278392--6278654	138	1.9	137	88	4	395	39	6	7	46	1.59
6278771--6278804	17	2.0	17	88	0	50	55	0	2	41	1.15
6279487--6279539	18	3.1	17	76	7	54	39	1	15	43	1.57
6283755--6283818	29	2.2	29	100	0	128	39	6	21	32	1.79
6284134--6284396	138	1.9	138	86	4	379	38	7	7	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6284589--6284615	2	13.5	2	100	0	54	51	0	0	48	1.00
6291320--6291348	2	14.5	2	100	0	58	51	0	0	48	1.00
6295445--6295471	11	2.5	11	100	0	54	48	37	0	14	1.45
6295911--6295983	31	2.4	31	83	4	94	38	12	16	32	1.86
6303786--6303834	2	24.5	2	100	0	98	51	0	0	48	1.00
6308817--6308875	26	2.3	26	88	2	84	35	28	13	22	1.92
6311633--6312172	189	2.9	189	92	0	902	20	20	24	34	1.96
6311625--6312198	98	6.0	98	83	7	730	20	20	24	34	1.96
6322066--6322150	9	8.9	10	78	12	56	75	3	2	18	1.06
6322066--6322152	14	6.2	13	74	10	57	74	3	2	19	1.07
6322123--6322152	11	2.8	11	95	5	53	76	0	0	23	0.78
6322081--6322152	19	3.6	18	71	22	54	73	4	1	20	1.07
6323400--6323457	16	3.9	14	78	22	57	44	0	0	55	0.99
6323370--6323507	72	1.9	73	85	4	190	42	5	0	51	1.31
6323477--6323516	18	2.2	18	86	4	53	37	5	2	55	1.35
6334109--6334199	25	3.6	25	87	1	137	52	28	10	7	1.64
6336566--6336601	18	2.0	18	88	0	54	36	25	2	36	1.70
6338163--6338199	17	2.2	17	95	0	65	18	29	13	37	1.90
6341387--6341439	18	3.1	17	76	7	54	43	15	1	39	1.57
6347864--6347895	15	2.1	15	94	0	55	37	9	6	46	1.61
6348096--6348577	177	2.7	181	77	9	456	41	8	10	39	1.72
6348692--6348954	138	1.9	137	87	4	386	38	7	7	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6349804--6349856	18	3.1	17	76	7	54	39	1	15	43	1.57
6353013--6353270	137	1.9	139	86	4	378	37	7	6	47	1.59
6353466--6353492	2	13.5	2	100	0	54	51	0	0	48	1.00
6360588--6360618	2	15.5	2	100	0	62	51	0	0	48	1.00
6363686--6363758	31	2.4	31	83	4	94	39	10	15	34	1.82
6364706--6364843	70	2.0	70	95	0	249	49	14	8	27	1.73
6365556--6365597	20	2.1	20	86	0	57	30	23	16	28	1.96
6368910--6369377	125	3.7	125	82	7	488	29	18	22	29	1.97
6368952--6369148	44	4.7	43	70	21	139	29	18	21	30	1.97
6369146--6369383	126	1.9	129	83	7	317	26	19	25	28	1.98
6369227--6369455	46	5.2	44	73	12	152	25	17	28	28	1.98
6371196--6371284	25	3.6	25	92	3	153	49	29	12	8	1.71
6372313--6372403	34	2.6	35	88	11	141	43	7	4	43	1.53
6372313--6372403	35	2.6	35	91	8	150	43	7	4	43	1.53
6375470--6375503	17	1.9	18	94	5	61	41	0	0	58	0.98
6375713--6375832	33	3.5	33	65	24	84	52	0	6	40	1.28
6375748--6375793	17	2.8	16	81	18	51	54	0	2	43	1.12
6375695--6375840	72	2.0	73	84	5	188	54	0	5	39	1.29
6377112--6377172	26	2.4	26	83	5	81	22	14	27	34	1.94
6387340--6387371	15	2.1	15	94	0	55	37	9	6	46	1.61
6387530--6388073	178	3.0	177	76	10	487	39	9	11	38	1.75
6388173--6388435	138	1.9	138	87	3	386	38	7	7	46	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6389283--6389325	18	2.4	18	88	3	61	37	2	20	39	1.66
6390607--6390734	3	42.7	3	92	0	211	34	3	0	62	1.11
6390733--6390777	20	2.3	19	84	3	54	62	2	0	35	1.08
6391241--6391273	15	2.2	15	100	0	66	78	9	12	0	0.95
6392103--6392141	19	2.1	19	90	9	62	28	0	2	69	1.02
6392168--6392209	21	2.0	20	86	4	57	38	2	2	57	1.25
6403555--6403580	13	2.0	13	100	0	52	92	0	7	0	0.39
6404620--6405172	83	6.7	83	95	0	991	27	12	22	37	1.90
6405843--6406253	113	3.7	113	92	1	657	37	13	18	29	1.90
6406575--6406692	3	39.7	3	89	1	184	34	3	0	61	1.12

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89